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To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("miRNAtap")
In most cases, you don't need to download the package archive at all.
miRNAtap
miRNAtap: microRNA Targets - Aggregated Predictions
Bioconductor version: 3.0
The package facilitates implementation of workflows requiring miRNA predictions, it allows to integrate ranked miRNA target predictions from multiple sources available online and aggregate them with various methods which improves quality of predictions above any of the single sources. Currently predictions are available for Homo sapiens, Mus musculus and Rattus norvegicus (the last one through homology translation).
Author: Maciej Pajak, T. Ian Simpson
Maintainer: Maciej Pajak <m.pajak at sms.ed.ac.uk>
Citation (from within R,
enter citation("miRNAtap")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("miRNAtap")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("miRNAtap")
| R Script | miRNAtap | |
| Reference Manual |
Details
| biocViews | Classification, Microarray, Sequencing, Software, miRNA |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) |
| License | GPL-2 |
| Depends | R (>= 3.0.0), AnnotationDbi |
| Imports | DBI, RSQLite, stringr, sqldf, plyr, methods |
| LinkingTo | |
| Suggests | topGO, org.Hs.eg.db, miRNAtap.db |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | miRNAtap.db |
| Imports Me | miRNAtap.db |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | miRNAtap_1.0.0.tar.gz |
| Windows Binary | miRNAtap_1.0.0.zip |
| Mac OS X 10.6 (Snow Leopard) | miRNAtap_1.0.0.tgz |
| Mac OS X 10.9 (Mavericks) | miRNAtap_1.0.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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